Clip1 MGI Mouse Gene Detail - MGI:1928401 - CAP-GLY domain containing linker protein 1

Symbol

Clip1
Name

CAP-GLY domain containing linker protein 1
Synonyms

1110007I12Rik, 4631429H07Rik, Clip 170, CLIP-170, Clip50, cytoplasmic linker protein 50, restin, Rsn

Feature Type

protein coding gene
IDs

MGI:1928401
NCBI Gene: 56430
Gene Overview

MyGene.info: CLIP1
Alliance

gene page
Transcription Start Sites

7 TSS

Sequence Map

Chr5:123577794-123684361 bp, - strand
From NCBI annotation of GRCm38

View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 63.06 cM
Mapping Data

2 experiments

SNPs within 2kb

623 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1928401	protein coding gene	Chr5:123577794-123684618 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0030076	protein coding gene	Chr5:127317644-127432360 (-)
A/J	MGP_AJ_G0030041	protein coding gene	Chr5:122033082-122140659 (-)
AKR/J	MGP_AKRJ_G0029977	protein coding gene	Chr5:125968147-126082192 (-)
BALB/cJ	MGP_BALBcJ_G0030052	protein coding gene	Chr5:123364922-123471254 (-)
C3H/HeJ	MGP_C3HHeJ_G0029769	protein coding gene	Chr5:126576152-126687819 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0030505	protein coding gene	Chr5:132250191-132378466 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0027731	protein coding gene	Chr5:116569731-116683655 (-)
CAST/EiJ	MGP_CASTEiJ_G0029178	protein coding gene	Chr5:125675898-125793545 (-)
CBA/J	MGP_CBAJ_G0029739	protein coding gene	Chr5:137437953-137564789 (-)
DBA/2J	MGP_DBA2J_G0029889	protein coding gene	Chr5:122045034-122156907 (-)
FVB/NJ	MGP_FVBNJ_G0029845	protein coding gene	Chr5:121087225-121198747 (-)
LP/J	MGP_LPJ_G0029978	protein coding gene	Chr5:127855310-127972783 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0029876	protein coding gene	Chr5:141071031-141188007 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0030546	protein coding gene	Chr5:125564268-125681136 (-)
PWK/PhJ	MGP_PWKPhJ_G0028892	protein coding gene	Chr5:120866466-120975614 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0028729	protein coding gene	Chr5:123232635-123352105 (-)
WSB/EiJ	MGP_WSBEiJ_G0029253	protein coding gene	Chr5:126241688-126369988 (-)

Human Ortholog

CLIP1, CAP-Gly domain containing linker protein 1

Vertebrate Orthologs

9

Human Ortholog

CLIP1, CAP-Gly domain containing linker protein 1
Orthology source: HomoloGene, HGNC
Synonyms

CLIP, CLIP170, CLIP-170, CYLN1, RSN
Links

HGNC:10461

NCBI Gene ID: 6249

neXtProt AC: NX_P30622

UniProt: P30622
Chr Location

12q24.31; chr12:122271432-122422956 (-) GRCh38.p7

HomoloGene

Vertebrate Homology Class 74455
1 human;1 mouse;1 chimpanzee;1 cattle;1 dog;1 chicken;1 zebrafish;1 frog, western clawed;1 macaque, rhesus
HCOP

human homology predictions: CLIP1
Gene Tree

Clip1

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Phenotype Summary

8 phenotypes from 2 alleles in 2 genetic backgrounds
12 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	immune system	integument	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	neoplasm	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	vision/eye

Click cells to view annotations.

All Mutations and Alleles

12
Chemically induced (other)

1
Gene trapped

7
Radiation induced

1
Targeted

3
Genomic Mutations

2 involving Clip1
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

5 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a targeted allele display reduced male fertility and teratozoospermia.

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All GO Annotations

31
GO References

10

External Resources

FuncBase

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell death	cell differentiation	cell population proliferation	cellular component organization	establishment of localization	homeostatic process	immune system process	lipid metabolic process	nucleic acid-templated transcription	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	non-membrane-bounded organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

18
Tissues

13
cDNA Data

16
Literature Summary

7

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase clip1

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Clip1 interacts with 264 markers (Mir9-1, Mir9-2, Mir9-3, ...) View All

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All Sequences

142
RefSeq

70
UniProt

10
CCDS

CCDS19667.1, CCDS71663.1, CCDS84958.1

Ensembl

ENSMUSG00000049550 (Evidence)
NCBI Gene

56430

			Length	Strain/Species	Flank
genomic	56430	NCBI Gene Model \| MGI Sequence Detail	106568	C57BL/6J	± kb
transcript	NM_019765	RefSeq \| MGI Sequence Detail	5877	C57BL/6
polypeptide	Q922J3	UniProt \| EBI \| MGI Sequence Detail	1391	Not Applicable

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UniProt

10 Sequences
PDB

2CP7
InterPro Domains

IPR000938 CAP Gly-rich domain

IPR036859 CAP Gly-rich domain superfamily

IPR032108 CLIP1, zinc knuckle

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All nucleic 20

cDNA 16

Primer pair 3

Other 1

Microarray probesets 7

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MGI:1915807, MGI:1921596, MGI:2141102, MGI:2141322

Summaries

All 59

Developmental Gene Expression 7

Gene Ontology 10

Phenotypes 12
Earliest

J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
Latest

J:256894 Jakka P, et al., Cytoplasmic Linker Protein CLIP170 Negatively Regulates TLR4 Signaling by Targeting the TLR Adaptor Protein TIRAP. J Immunol. 2018 Jan 15;200(2):704-714

TSS for Clip1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr53264	Chr5:123684289-123684379 (-)	27 bp
Tssr53263	Chr5:123684275-123684286 (-)	80 bp
Tssr53256	Chr5:123666713-123666726 (-)	17,641 bp
Tssr53255	Chr5:123666701-123666709 (-)	17,656 bp
Tssr53254	Chr5:123666682-123666695 (-)	17,672 bp
Tssr53249	Chr5:123612153-123612178 (-)	72,195 bp
Tssr53248	Chr5:123603675-123603706 (-)	80,670 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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